Bioconductor TFBSTools

Showing : TFBSTools • reset

votes

654

views

TFBSTools R forloop

updated 2.4 years ago by onlineclasshelpnow • 0 • written 2.4 years ago by HELEN • 0

votes

replies

624

views

TFBSTools FASTA RStudio

2.4 years ago HELEN • 0

votes

740

views

TFBSTools DNASeqData readFASTA DNA RStudio

updated 2.5 years ago by James W. MacDonald 65k • written 2.5 years ago by HELEN • 0

votes

replies

805

views

error TFBSTools R

2.5 years ago HELEN • 0

votes

replies

613

views

TFBSTools RStudio R

2.5 years ago HELEN • 0

votes

2.3k

views

pwm tfbstools jaspar

updated 6.6 years ago by Ge Tan ▴ 20 • written 6.6 years ago by chrisclarkson100 ▴ 50

vote

1.7k

views

TFBSTools looping PFMatrixList PFMatrix bioconductor

6.9 years ago nathan.lawlor03 • 0

votes

1.0k

views

bioconductor tfbstools

updated 7.5 years ago by Ge Tan ▴ 20 • written 7.5 years ago by laurabuggiotti • 0

votes

1.3k

views

tfbstools jaspar

updated 8.5 years ago by Ge Tan ▴ 20 • written 8.5 years ago by JasonLouisStein • 0

votes

1.3k

views

tfbstools

updated 8.9 years ago by Ge Tan ▴ 20 • written 9.1 years ago by franceskrussell • 0

10 results • Page 1 of 1

Recent ...

Replies

Comment: significant difference of p-values with dream() after updating VariancePartition by Le • 0

Thanks for your reply @gabrielhoffman ! I've been trying to isolate the changes, and v1.32.5 had the same results as v1.33.1 while v1.30.0…

Comment: How to tell and visualize up/down regulation of pathways from clusterprofiler gs by sredemption • 0

Try library(enrichplot) dotplot(gsea_FS, showCategory=10, split=".sign") + facet_grid(.~.sign)

Comment: FGSEA pre-ranked input in increasing order or decreasing by sropri • 0

Thank you for your reply and I know there is another post similar to this you had mentioned this. How are the genes that I mentioned in the…

Answer: FGSEA pre-ranked input in increasing order or decreasing by alserg ▴ 240

The genes are automatically ordered within `fgsea`, there is no need to sort them manually.

Comment: Differential peaks that were not identified in diffbind were identified in diseq by ATpoint ★ 4.0k

Make an MAplot. There is almost certainly an issue with normalization here given the very biased distribution of logFCs as in this Volcano.

Votes

How to tell and visualize up/down regulation of pathways from clusterprofiler gsea output

Comment: DEXSeq DEXSeqDataSet count matrix duplication

Comment: Error in champ.load(): The following specified files do not exist

Answer: Error in read.metharray(basenames = files, extended = extended, verbose = verbos

Using GRanges and IRanges to simply get all chromosome data

Awards • All